From 69b62e54a5b9359eba2531343b678ee885c99e22 Mon Sep 17 00:00:00 2001
From: Tanushree Tunstall <tanu@tunstall.in>
Date: Thu, 18 Feb 2021 11:27:20 +0000
Subject: [PATCH] running dynamut in batches

---
 dynamut/run_get_results_dynamut.py | 11 +++++++----
 dynamut/run_submit_dynamut.py      | 21 ++++++---------------
 2 files changed, 13 insertions(+), 19 deletions(-)

diff --git a/dynamut/run_get_results_dynamut.py b/dynamut/run_get_results_dynamut.py
index b796a2d..4c3949b 100644
--- a/dynamut/run_get_results_dynamut.py
+++ b/dynamut/run_get_results_dynamut.py
@@ -9,7 +9,7 @@ Created on Wed Aug 19 14:33:51 2020
 import os
 homedir = os.path.expanduser('~')
 os.chdir (homedir + '/git/LSHTM_analysis/dynamut')
-from get_results import *
+from get_results_dynamut import *
 ########################################################################
 # variables
 my_host = 'http://biosig.unimelb.edu.au'
@@ -23,9 +23,12 @@ datadir = homedir + '/git/Data'
 indir = datadir + '/' + drug + '/input'
 outdir = datadir + '/' + drug + '/output'
 
-# batch 1: 00.txt
-my_url_file =  outdir + '/dynamut_temp/dynamut_result_url_gid_b1.txt'
-my_suffix = 'gid_b1'
+#==============================================================================
+# batch 3: 02.txt, # RETRIEVED 18 Feb
+my_url_file =  outdir + '/dynamut_temp/dynamut_result_url_gid_b3.txt'
+my_suffix = 'gid_b3'
+
+#==============================================================================
 
 #==========================
 # CALL: get_results() 
diff --git a/dynamut/run_submit_dynamut.py b/dynamut/run_submit_dynamut.py
index 53585a2..edf56ca 100644
--- a/dynamut/run_submit_dynamut.py
+++ b/dynamut/run_submit_dynamut.py
@@ -9,7 +9,7 @@ Created on Wed Aug 19 14:33:51 2020
 import os
 homedir = os.path.expanduser('~')
 os.chdir (homedir + '/git/LSHTM_analysis/dynamut')
-from submit import *
+from submit_dynamut import *
 ########################################################################
 # variables
 my_host = 'http://biosig.unimelb.edu.au'
@@ -28,20 +28,11 @@ my_email = 'tanushree.tunstall@lshtm.ac.uk'
 
 my_pdb_file = indir + '/gid_complex.pdb'
 
-# batch 1: 00.txt
-#my_mutation_list =outdir + '/snp_batches/50/snp_batch_00.txt'
-#my_suffix = 'gid_b1'
-#RAN: 11 Feb, ~14:00 pm * RETRIEVED
-
-# batch 2: 01.txt
-#my_mutation_list = outdir + '/snp_batches/50/snp_batch_01.txt'
-#my_suffix = 'gid_b2'
-#RAN: 12 Feb, ~10:00 am, AWAITING
-
-# batch 3: 02.txt
-my_mutation_list = outdir + '/snp_batches/50/snp_batch_02.txt'
-my_suffix = 'gid_b3'
-#RAN: 12 Feb, ~12:40 pm, AWAITING
+#==============================================================================
+# batch 5: 04.txt, # RAN: 18 Feb, ~11:21
+my_mutation_list = outdir + '/snp_batches/50/snp_batch_04.txt'
+my_suffix = 'gid_b5'
+#==============================================================================
 
 #==========================
 # CALL: submit_dynamut()